ARFK_ARATH
ID ARFK_ARATH Reviewed; 622 AA.
AC Q9ZPY6; Q0WMA6; Q0WMQ7; Q3E6N4; Q5IRX6;
DT 26-APR-2004, integrated into UniProtKB/Swiss-Prot.
DT 26-MAY-2009, sequence version 3.
DT 25-MAY-2022, entry version 141.
DE RecName: Full=Auxin response factor 11;
GN Name=ARF11; OrderedLocusNames=At2g46530; ORFNames=F11C10.34, F13A10.6;
OS Arabidopsis thaliana (Mouse-ear cress).
OC Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae;
OC rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis.
OX NCBI_TaxID=3702;
RN [1]
RP NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
RC STRAIN=cv. Columbia;
RX PubMed=15659631; DOI=10.1105/tpc.104.028316;
RA Okushima Y., Overvoorde P.J., Arima K., Alonso J.M., Chan A., Chang C.,
RA Ecker J.R., Hughes B., Lui A., Nguyen D., Onodera C., Quach H., Smith A.,
RA Yu G., Theologis A.;
RT "Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family
RT members in Arabidopsis thaliana: unique and overlapping functions of ARF7
RT and ARF19.";
RL Plant Cell 17:444-463(2005).
RN [2]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
RC STRAIN=cv. Columbia;
RX PubMed=10617197; DOI=10.1038/45471;
RA Lin X., Kaul S., Rounsley S.D., Shea T.P., Benito M.-I., Town C.D.,
RA Fujii C.Y., Mason T.M., Bowman C.L., Barnstead M.E., Feldblyum T.V.,
RA Buell C.R., Ketchum K.A., Lee J.J., Ronning C.M., Koo H.L., Moffat K.S.,
RA Cronin L.A., Shen M., Pai G., Van Aken S., Umayam L., Tallon L.J.,
RA Gill J.E., Adams M.D., Carrera A.J., Creasy T.H., Goodman H.M.,
RA Somerville C.R., Copenhaver G.P., Preuss D., Nierman W.C., White O.,
RA Eisen J.A., Salzberg S.L., Fraser C.M., Venter J.C.;
RT "Sequence and analysis of chromosome 2 of the plant Arabidopsis thaliana.";
RL Nature 402:761-768(1999).
RN [3]
RP GENOME REANNOTATION.
RC STRAIN=cv. Columbia;
RX PubMed=27862469; DOI=10.1111/tpj.13415;
RA Cheng C.Y., Krishnakumar V., Chan A.P., Thibaud-Nissen F., Schobel S.,
RA Town C.D.;
RT "Araport11: a complete reannotation of the Arabidopsis thaliana reference
RT genome.";
RL Plant J. 89:789-804(2017).
RN [4]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 3).
RC STRAIN=cv. Columbia;
RX PubMed=14993207; DOI=10.1101/gr.1515604;
RA Castelli V., Aury J.-M., Jaillon O., Wincker P., Clepet C., Menard M.,
RA Cruaud C., Quetier F., Scarpelli C., Schaechter V., Temple G., Caboche M.,
RA Weissenbach J., Salanoubat M.;
RT "Whole genome sequence comparisons and 'full-length' cDNA sequences: a
RT combined approach to evaluate and improve Arabidopsis genome annotation.";
RL Genome Res. 14:406-413(2004).
RN [5]
RP NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
RC STRAIN=cv. Columbia;
RA Totoki Y., Seki M., Ishida J., Nakajima M., Enju A., Kamiya A.,
RA Narusaka M., Shin-i T., Nakagawa M., Sakamoto N., Oishi K., Kohara Y.,
RA Kobayashi M., Toyoda A., Sakaki Y., Sakurai T., Iida K., Akiyama K.,
RA Satou M., Toyoda T., Konagaya A., Carninci P., Kawai J., Hayashizaki Y.,
RA Shinozaki K.;
RT "Large-scale analysis of RIKEN Arabidopsis full-length (RAFL) cDNAs.";
RL Submitted (JUL-2006) to the EMBL/GenBank/DDBJ databases.
RN [6]
RP GENE FAMILY, NOMENCLATURE, AND FUNCTION.
RX PubMed=12036261; DOI=10.1023/a:1015207114117;
RA Hagen G., Guilfoyle T.J.;
RT "Auxin-responsive gene expression: genes, promoters and regulatory
RT factors.";
RL Plant Mol. Biol. 49:373-385(2002).
RN [7]
RP GENE FAMILY.
RX PubMed=18986826; DOI=10.1016/j.tplants.2008.09.006;
RA Swaminathan K., Peterson K., Jack T.;
RT "The plant B3 superfamily.";
RL Trends Plant Sci. 13:647-655(2008).
CC -!- FUNCTION: Auxin response factors (ARFs) are transcriptional factors
CC that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the
CC auxin-responsive promoter elements (AuxREs). Could act as
CC transcriptional activator or repressor. Formation of heterodimers with
CC Aux/IAA proteins may alter their ability to modulate early auxin
CC response genes expression. {ECO:0000269|PubMed:12036261}.
CC -!- SUBUNIT: Homodimers and heterodimers. {ECO:0000250}.
CC -!- SUBCELLULAR LOCATION: Nucleus.
CC -!- ALTERNATIVE PRODUCTS:
CC Event=Alternative splicing; Named isoforms=3;
CC Name=1;
CC IsoId=Q9ZPY6-1; Sequence=Displayed;
CC Name=2;
CC IsoId=Q9ZPY6-2; Sequence=VSP_037316, VSP_037317;
CC Name=3;
CC IsoId=Q9ZPY6-3; Sequence=VSP_037315, VSP_037318;
CC -!- DOMAIN: Interactions between auxin response factors (ARFs) and Aux/IAA
CC proteins occur through their C-terminal dimerization domains III and
CC IV.
CC -!- SIMILARITY: Belongs to the ARF family. {ECO:0000305}.
CC -!- SEQUENCE CAUTION:
CC Sequence=BX837073; Type=Miscellaneous discrepancy; Note=Sequencing errors.; Evidence={ECO:0000305};
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DR EMBL; AY669791; AAT67075.1; -; mRNA.
DR EMBL; AC006418; AAD20164.1; -; Genomic_DNA.
DR EMBL; AC006526; AAM15267.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC10714.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC10715.1; -; Genomic_DNA.
DR EMBL; CP002685; AEC10716.1; -; Genomic_DNA.
DR EMBL; AK229757; BAF01593.1; -; mRNA.
DR EMBL; BX837073; -; NOT_ANNOTATED_CDS; mRNA.
DR EMBL; AK229924; BAF01750.1; -; mRNA.
DR PIR; A84904; A84904.
DR RefSeq; NP_001031548.1; NM_001036471.1. [Q9ZPY6-1]
DR RefSeq; NP_182176.2; NM_130218.5. [Q9ZPY6-2]
DR RefSeq; NP_973701.1; NM_201972.1. [Q9ZPY6-3]
DR AlphaFoldDB; Q9ZPY6; -.
DR SMR; Q9ZPY6; -.
DR BioGRID; 4599; 2.
DR IntAct; Q9ZPY6; 2.
DR STRING; 3702.AT2G46530.3; -.
DR iPTMnet; Q9ZPY6; -.
DR PaxDb; Q9ZPY6; -.
DR PRIDE; Q9ZPY6; -.
DR ProteomicsDB; 246956; -. [Q9ZPY6-1]
DR EnsemblPlants; AT2G46530.1; AT2G46530.1; AT2G46530. [Q9ZPY6-2]
DR EnsemblPlants; AT2G46530.2; AT2G46530.2; AT2G46530. [Q9ZPY6-3]
DR EnsemblPlants; AT2G46530.3; AT2G46530.3; AT2G46530. [Q9ZPY6-1]
DR GeneID; 819264; -.
DR Gramene; AT2G46530.1; AT2G46530.1; AT2G46530. [Q9ZPY6-2]
DR Gramene; AT2G46530.2; AT2G46530.2; AT2G46530. [Q9ZPY6-3]
DR Gramene; AT2G46530.3; AT2G46530.3; AT2G46530. [Q9ZPY6-1]
DR KEGG; ath:AT2G46530; -.
DR Araport; AT2G46530; -.
DR TAIR; locus:2039124; AT2G46530.
DR eggNOG; ENOG502QTME; Eukaryota.
DR HOGENOM; CLU_002626_4_4_1; -.
DR InParanoid; Q9ZPY6; -.
DR OMA; QLYMELW; -.
DR OrthoDB; 255144at2759; -.
DR PhylomeDB; Q9ZPY6; -.
DR PRO; PR:Q9ZPY6; -.
DR Proteomes; UP000006548; Chromosome 2.
DR ExpressionAtlas; Q9ZPY6; baseline and differential.
DR Genevisible; Q9ZPY6; AT.
DR GO; GO:0005634; C:nucleus; IEA:UniProtKB-SubCell.
DR GO; GO:0009506; C:plasmodesma; HDA:TAIR.
DR GO; GO:0003700; F:DNA-binding transcription factor activity; ISS:TAIR.
DR GO; GO:0000976; F:transcription cis-regulatory region binding; IPI:TAIR.
DR GO; GO:0009734; P:auxin-activated signaling pathway; IEA:UniProtKB-KW.
DR CDD; cd10017; B3_DNA; 1.
DR Gene3D; 2.40.330.10; -; 1.
DR InterPro; IPR010525; ARF_dom.
DR InterPro; IPR044835; ARF_plant.
DR InterPro; IPR033389; AUX/IAA_dom.
DR InterPro; IPR003340; B3_DNA-bd.
DR InterPro; IPR015300; DNA-bd_pseudobarrel_sf.
DR InterPro; IPR000270; PB1_dom.
DR PANTHER; PTHR31384; PTHR31384; 1.
DR Pfam; PF02309; AUX_IAA; 2.
DR Pfam; PF06507; Auxin_resp; 1.
DR Pfam; PF02362; B3; 1.
DR SMART; SM01019; B3; 1.
DR SUPFAM; SSF101936; SSF101936; 1.
DR PROSITE; PS50863; B3; 1.
DR PROSITE; PS51745; PB1; 1.
PE 2: Evidence at transcript level;
KW Alternative splicing; Auxin signaling pathway; DNA-binding; Nucleus;
KW Reference proteome; Transcription; Transcription regulation.
FT CHAIN 1..622
FT /note="Auxin response factor 11"
FT /id="PRO_0000111515"
FT DOMAIN 511..594
FT /note="PB1"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU01081"
FT DNA_BIND 145..247
FT /note="TF-B3"
FT /evidence="ECO:0000255|PROSITE-ProRule:PRU00326"
FT REGION 358..398
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT REGION 483..513
FT /note="Disordered"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT COMPBIAS 376..398
FT /note="Polar residues"
FT /evidence="ECO:0000256|SAM:MobiDB-lite"
FT VAR_SEQ 1..108
FT /note="Missing (in isoform 3)"
FT /evidence="ECO:0000303|PubMed:14993207"
FT /id="VSP_037315"
FT VAR_SEQ 1..21
FT /note="Missing (in isoform 2)"
FT /evidence="ECO:0000303|Ref.5"
FT /id="VSP_037316"
FT VAR_SEQ 22..32
FT /note="WLKLIAVGWNL -> MANVEADFRTS (in isoform 2)"
FT /evidence="ECO:0000303|Ref.5"
FT /id="VSP_037317"
FT VAR_SEQ 109..125
FT /note="TDEVYAQITLQPEEDQS -> MRPMRFTLRSHYNQKKI (in isoform
FT 3)"
FT /evidence="ECO:0000303|PubMed:14993207"
FT /id="VSP_037318"
FT CONFLICT 141
FT /note="T -> A (in Ref. 4; BAF01593)"
FT /evidence="ECO:0000305"
FT CONFLICT 493
FT /note="Q -> H (in Ref. 4; BAF01593)"
FT /evidence="ECO:0000305"
SQ SEQUENCE 622 AA; 69663 MW; 56DAA7CAC735F926 CRC64;
MSQTSLEPLI ISIIKLQILQ LWLKLIAVGW NLGSNDDELY TELWKACAGP LVEVPRYGER
VFYFPQGHME QLVASTNQGV VDQEIPVFNL PPKILCRVLS VTLKAEHETD EVYAQITLQP
EEDQSEPTSL DPPLVEPAKP TVDSFVKILT ASDTSTHGGF SVLRKHATEC LPSLDMTQPT
PTQELVARDL HGYEWRFKHI FRGQPRRHLL TTGWSTFVTS KRLVAGDAFV FLRGETGDLR
VGVRRLAKQQ STMPASVISS QSMRLGVLAT ASHAVTTTTI FVVFYKPRIS QFIISVNKYM
MAMKNGFSLG MRYRMRFEGE ESPERIFTGT IIGSGDLSSQ WPASKWRSLQ IQWDEPSSIQ
RPNKVSPWEI EPFSPSALTP TPTQQQSKSK RSRPISEITG SPVASSFLSS FSQSHESNPS
VKLLFQDPAT ERNSNKSVFS SGLQCKITEA PVTSSCRLFG FDLTSKPASA TIPHDKQLIS
VDSNISDSTT KCQDPNSSNS PKEQKQQTST RSRIKVQMQG TAVGRAVDLT LLRSYDELIK
ELEKMFEIEG ELSPKDKWAI VFTDDEGDRM LVGDDPWNEF CKMAKKLFIY PSDEVKKMRS
KSLLGDKGTI VNLESDQRTV HV
